Minimum Common String Partition Problem: Hardness and Approximations

String comparison is a fundamental problem in computer science, with applications in areas such as computational biology, text processing or compression. In this paper we address the minimum common string partition problem, a string comparison problem with tight connection to the problem of sorting by reversals with duplicates, a key problem in genome rearrangement. A partition of a string A is a sequence P = (P1, P2, . . . , Pm) of strings, called the blocks, whose concatenation is equal to A. Given a partition P of a string A and a partition Q of a string B, we say that the pair P, Q is a common partition of A and B if Q is a permutation of P. The minimum common string partition problem (MCSP) is to find a common partition of two strings A and B with the minimum number of blocks. The restricted version of MCSP where each letter occurs at most k times in each input string, is denoted by k-MCSP. In this paper, we show that 2-MCSP (and therefore MCSP) is NP-hard

• Type: Conference
• Year: 2004
• Where: ISAAC
• Authors: Avraham Goldstein, Petr Kolman, Jie Zheng
• Keywords: Common String Partition, ISAAC 2004, String, String Partition Problem